User:Wayne Decatur/Sandboxmangai

Isochorismate-Pyruvate Lyase
Isochorismate-Pyruvate Lyase: apoenzyme to open conformation with pyruvate bound made by chains A and B of 2h9c morphed to A and B of 2h9d Click here to initiate the animation showing morph of aopenzyme to pyruvate bound to the open confirmation. Click here to see sidechains in the morph too.

Isochorismate-Pyruvate Lyase: open conformation with pyruvate bound morphing to closed conformation with pyruvate bound made by chains A and B of 2h9d morphed to chains C and D

Click here to initiate the animation showing morph of open conformation with pyruvate bound morphing to closed conformation with pyruvate bound. Morph uses all 8 models obtained from editing sets of chains A and B and chains C and D to be submitted to Yale Morph server. Copied C and D and pyruvates to new files. For chains A and B file, I deleted C and D and CA heteroatom. Used alter command (example for chain c= select chain C; alter (chain C),chain='A') in PyMol to change names of C and D chains in file to A and B. Then removed some residues with gaps to match better but seemed unnecessary because one worked before doing that but I thought it failed because went to spam.

View the morph from open to closed conformation with sidechains shown too.

Found out about '''PyMol's alter command at http://pymol.sourceforge.net/newman/ref/S1000comref.html. Ran sort command after each altering'''.

Test later